Panoptic Part Segmentation (PPS) unifies panoptic segmentation and part segmentation into one task. Previous works utilize separated approaches to handle thing, stuff, and part predictions without shared computation and task association. We aim to unify these tasks at the architectural level, designing the first end-to-end unified framework named Panoptic-PartFormer. Moreover, we find the previous metric PartPQ biases to PQ. To handle both issues, we make the following contributions: Firstly, we design a meta-architecture that decouples part feature and things/stuff feature, respectively. We model things, stuff, and parts as object queries and directly learn to optimize all three forms of prediction as a unified mask prediction and classification problem. We term our model as Panoptic-PartFormer. Secondly, we propose a new metric Part-Whole Quality (PWQ) to better measure such task from both pixel-region and part-whole perspectives. It can also decouple the error for part segmentation and panoptic segmentation. Thirdly, inspired by Mask2Former, based on our meta-architecture, we propose Panoptic-PartFormer++ and design a new part-whole cross attention scheme to further boost part segmentation qualities. We design a new part-whole interaction method using masked cross attention. Finally, the extensive ablation studies and analysis demonstrate the effectiveness of both Panoptic-PartFormer and Panoptic-PartFormer++. Compared with previous Panoptic-PartFormer, our Panoptic-PartFormer++ achieves 2% PartPQ and 3% PWQ improvements on the Cityscapes PPS dataset and 5% PartPQ on the Pascal Context PPS dataset. On both datasets, Panoptic-PartFormer++ achieves new state-of-the-art results with a significant cost drop of 70% on GFlops and 50% on parameters. Our models can serve as a strong baseline and aid future research in PPS. Code will be available at https://github.com/lxtGH/Panoptic-PartFormer.